Single-cell RNA-seq of the embryonic zebrafish heads from wild-type siblings and betaPix CRISPR mutants at 1 dpf and 2 dpf

Proper establishment of the blood–brain barrier and maintenance of cerebrovascular integrity require precise coordination among neural and vascular cell types during early vertebrate development. To define the transcriptional programs underlying these processes and the role of glial betaPix, we generated a comprehensive single-cell RNA-seq dataset from embryonic heads of wild-type siblings and betaPix CRISPR mutants at 1 and 2 days post-fertilization (dpf). Comparative analyses revealed that loss of betaPix selectively disrupted transcriptional programs in glial and neuronal progenitors, including down-regulation of microtubule-associated stathmin signaling and pro-angiogenic transcription factors Zfhx3/4. These changes highlight betaPix as an upstream regulator of PAK1–Stathmin and Zfhx3/4–Vegfaa pathways required for coordinated glial migration and angiogenesis. This single-cell resource thus provides a developmental framework for understanding how glial betaPix contributes to blood–b..., , # Single-cell RNA-seq of the embryonic zebrafish heads from wild-type siblings and betaPix CRISPR mutants at 1 dpf and 2 dpf

Dataset DOI: [10.5061/dryad.tb2rbp0g3](https://doi.org/10.5061/dryad.tb2rbp0g3)

## Description of the data and file structure

This dataset is associated with Chiu et al. 2025, Glial betaPix is essential for blood vessel development in the zebrafish brain.

In this study, single-cell transcriptome libraries were obtained from embryonic zebrafish heads of wild-type siblings and betaPix CRISPR mutants at 1 dpf and 2 dpf. 300 ng/µL Cas9 mRNA and a mixture of number 1 to 4 *betaPix* gRNAs with 50 ng/µL each were co-injected into wildtype zebrafish embryos at one-cell stage. Injection with equivalent concentration of Cas9 mRNA with PBS served as siblings. After microinjection, embryos were collected and maintained at 28.5°C. At 24 or 48 hpf, zebrafish were dechorionated, paralyzed and transferred onto agarose plate. Heads were harvested with dissecting scissors in c...,